DESCRIPTION

Package: PANACEA
Title: Personalized Network-Based Anti-Cancer Therapy Evaluation
Version: 1.0.1.9000
Authors@R: 
    person(given = "Ege",
           family = "Ulgen",
           role = c("aut", "cre", "cph"),
           email = "egeulgen@gmail.com",
           comment = c(ORCID = "0000-0003-2090-3621"))
Maintainer: Ege Ulgen <egeulgen@gmail.com>
Description: Identification of the most appropriate pharmacotherapy for each 
    patient based on genomic alterations is a major challenge in personalized 
    oncology. 'PANACEA' is a collection of personalized anti-cancer drug 
    prioritization approaches utilizing network methods. The methods utilize 
    personalized "driverness" scores from 'driveR' to rank drugs, mapping these
    onto a protein-protein interaction network. The "distance-based" method 
    scores each drug based on these scores and distances between drugs and genes
    to rank given drugs. The "RWR" method propagates these scores via a 
    random-walk with restart framework to rank the drugs. The methods are 
    described in detail in Ulgen E, Ozisik O, Sezerman OU. 2023. PANACEA: 
    network-based methods for pharmacotherapy prioritization in personalized 
    oncology. Bioinformatics <doi:10.1093/bioinformatics/btad022>.
License: MIT + file LICENSE
Encoding: UTF-8
Roxygen: list(markdown = TRUE)
RoxygenNote: 7.2.3
URL: https://github.com/egeulgen/PANACEA,
    https://egeulgen.github.io/PANACEA/
BugReports: https://github.com/egeulgen/PANACEA/issues
biocViews:
Imports: org.Hs.eg.db,
    DBI,
    igraph,
    reshape2
Suggests: 
    rmarkdown,
    knitr,
    testthat (>= 3.0.0),
    covr
Config/testthat/edition: 3
Depends: R (>= 4.0)
LazyData: true
LazyDataCompression: xz
VignetteBuilder: knitr